Molecular structure of deoxycytidyl–3′– ethylphosphonate (RP) 5′–deoxyguanidine, d[Cp(CH3)G]. A neutral dinucleotide with Watson-Crick base pairing and a right handed helical twist
- 1 January 1990
- journal article
- research article
- Published by Oxford University Press (OUP) in Nucleic Acids Research
- Vol. 18 (9) , 2759-2767
- https://doi.org/10.1093/nar/18.9.2759
Abstract
The crystal structure of d[Cp(CH3)G] has been determined as part of a project to study the mechanism of the B .fwdarw. Z transition in DNA. The asymmetric unit contains two dinucleotides and the equivalent of 7.5 water molecules, partially disordered over 12 definable positions. The two symmetry-independent dinucleotides form a duplex with Watson-Crick base-pairing and a right-handed helical sense. Comparison with previously determined structures of the B and A conformation showed that this duplex is closer to B than to A but significantly different from B. It corresponds to a stretched out helix with a 4 .ANG. rise per base pair and a helical twist of 32.degree.. This structure may serve as a model for the bending of DNA in certain situations. The configuration at the methyl phosphonate is Rp, and a mechanism, based on this assignment, is presented for the B.fwdarw.Z transition in DNA.This publication has 17 references indexed in Scilit:
- B- to Z-DNA transition probed by oligonucleotides containing methylphosphonates.Proceedings of the National Academy of Sciences, 1986
- The Anatomy of A-, B-, and Z-DNAScience, 1982
- A Z-like form of poly(dA-dC).poly(dC-bT) in sotation?Nucleic Acids Research, 1982
- Structure of a B-DNA dodecamerJournal of Molecular Biology, 1981
- Molecular structure of a left-handed double helical DNA fragment at atomic resolutionNature, 1979
- Primary organization of nucleosome core particle of chromatin: sequence of histone arrangement along DNA.Proceedings of the National Academy of Sciences, 1978
- RNA double-helical fragments at atomic resolution: II. The crystal structure of sodium guanylyl-3′,5′-cytidine nonahydrateJournal of Molecular Biology, 1976
- RNA double-helical fragments at atomic resolution: I. The crystal and molecular structure of sodium adenylyl-3′,5′-uridine hexahydrateJournal of Molecular Biology, 1976
- Kinky helixNature, 1975
- Salt-induced co-operative conformational change of a synthetic DNA: Equilibrium and kinetic studies with poly(dG-dC)Journal of Molecular Biology, 1972